Hi,
I just found out that I forgot to link average7 when I did the 'recon-all' on two subjects' brain data. Will it affect the talairach coordinates? Do I need to do the brain inflation again? Also, I found that the label files, e.g. lh.aparc.annot and rh.aparc.annot, which are expected to be in the 'labels' sub-folder of the subject directory. Is there any way that I can generate these labels files again?
Thank you for your help in advance.
Phoebe
--- Phoebe Suk-tak Chan, Ph.D. Assistant Professor The Hong Kong Polytechnic University Department of Optometry and Radiography Hunghom, Kowloon Hong Kong SAR Tel: (852) 2766 6095 Fax: (852) 2764 6051
Hi Phoebe,
you shouldn't have to redo any of that stuff. Average7 is only used as a domain for visualizing group data, although you are better off making an average of the subjects in your study and using it instead (in which case you shouldn't need average7 at all)
cheers, Bruce
On Tue, 5 Apr 2005 orphoebe@polyu.edu.hk wrote:
Hi,
I just found out that I forgot to link average7 when I did the 'recon-all' on two subjects' brain data. Will it affect the talairach coordinates? Do I need to do the brain inflation again? Also, I found that the label files, e.g. lh.aparc.annot and rh.aparc.annot, which are expected to be in the 'labels' sub-folder of the subject directory. Is there any way that I can generate these labels files again?
Thank you for your help in advance.
Phoebe
Phoebe Suk-tak Chan, Ph.D. Assistant Professor The Hong Kong Polytechnic University Department of Optometry and Radiography Hunghom, Kowloon Hong Kong SAR Tel: (852) 2766 6095 Fax: (852) 2764 6051 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Phoebe,
it will not affect the talairach coords, and you don't need to do the inflation again. I'm not sure why the aparcs were not generated. Are you sure you have a version of recon-all that generates the aparcs? For a while we were not releasing it, and I'm not sure whether it is in the most recent version. Also, recon-all will map a few labels (eg, calcarine) from average7 to your subject so that you can check whether the label lands in about the right place. If you don't have average7, then this may have failed. You can check the log file (which is usually good to send when you are submitting a bug report :).
doug
orphoebe@polyu.edu.hk wrote:
Hi,
I just found out that I forgot to link average7 when I did the 'recon-all' on two subjects' brain data. Will it affect the talairach coordinates? Do I need to do the brain inflation again? Also, I found that the label files, e.g. lh.aparc.annot and rh.aparc.annot, which are expected to be in the 'labels' sub-folder of the subject directory. Is there any way that I can generate these labels files again?
Thank you for your help in advance.
Phoebe
Phoebe Suk-tak Chan, Ph.D. Assistant Professor The Hong Kong Polytechnic University Department of Optometry and Radiography Hunghom, Kowloon Hong Kong SAR Tel: (852) 2766 6095 Fax: (852) 2764 6051 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Doug Greve -
orphoebe＠polyu.edu.hk